data_VO8 # _chem_comp.id VO8 _chem_comp.name "5-(2-{2-[2-oxo-3-(prop-2-enoyl)-2,3-dihydro-1H-benzimidazol-1-yl]ethoxy}phenoxy)naphthalene-2-carbonitrile" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C29 H23 N3 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-09-14 _chem_comp.pdbx_modified_date 2023-11-03 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 477.511 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VO8 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 8U6T _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal VO8 C10 C1 C 0 1 Y N N N N N 48.029 5.307 18.710 2.568 -3.330 -2.260 C10 VO8 1 VO8 C1 C2 C 0 1 N N N N N N 44.017 -2.553 19.137 -6.437 2.537 -2.090 C1 VO8 2 VO8 C2 C3 C 0 1 N N N N N N 45.007 -2.844 19.937 -5.746 1.297 -1.518 C2 VO8 3 VO8 C3 C4 C 0 1 N N N N N N 45.351 -2.106 21.004 -4.708 1.719 -0.511 C3 VO8 4 VO8 O1 O1 O 0 1 N N N N N N 46.166 -2.554 21.788 -4.538 2.895 -0.273 O1 VO8 5 VO8 N1 N1 N 0 1 N N N N N N 44.842 -0.831 21.238 -3.970 0.788 0.126 N1 VO8 6 VO8 C4 C5 C 0 1 N N N N N N 43.998 -0.137 20.376 -4.057 -0.544 -0.050 C4 VO8 7 VO8 O2 O2 O 0 1 N N N N N N 43.558 -0.514 19.294 -4.821 -1.100 -0.816 O2 VO8 8 VO8 N2 N2 N 0 1 N N N N N N 43.746 1.072 20.985 -3.171 -1.166 0.749 N2 VO8 9 VO8 C5 C6 C 0 1 N N N N N N 42.897 2.095 20.380 -2.968 -2.614 0.840 C5 VO8 10 VO8 C6 C7 C 0 1 N N N N N N 43.676 2.967 19.461 -1.905 -3.045 -0.172 C6 VO8 11 VO8 O3 O3 O 0 1 N N N N N N 44.534 3.758 20.267 -0.648 -2.464 0.181 O3 VO8 12 VO8 C7 C8 C 0 1 Y N N N N N 45.654 4.271 19.680 0.411 -2.749 -0.623 C7 VO8 13 VO8 C8 C9 C 0 1 Y N N N N N 45.767 4.626 18.346 0.247 -3.578 -1.721 C8 VO8 14 VO8 C9 C10 C 0 1 Y N N N N N 46.962 5.144 17.866 1.323 -3.862 -2.540 C9 VO8 15 VO8 C11 C11 C 0 1 Y N N N N N 47.920 4.956 20.048 2.742 -2.511 -1.160 C11 VO8 16 VO8 C12 C12 C 0 1 Y N N N N N 46.746 4.435 20.525 1.666 -2.218 -0.338 C12 VO8 17 VO8 O4 O4 O 0 1 N N N N N N 46.619 4.090 21.863 1.833 -1.404 0.738 O4 VO8 18 VO8 C13 C13 C 0 1 Y N N N N N 46.496 5.125 22.765 3.043 -0.813 0.909 C13 VO8 19 VO8 C14 C14 C 0 1 Y N N N N N 45.876 6.291 22.465 3.995 -1.400 1.712 C14 VO8 20 VO8 C15 C15 C 0 1 Y N N N N N 45.790 7.308 23.426 5.240 -0.803 1.895 C15 VO8 21 VO8 C16 C16 C 0 1 Y N N N N N 46.323 7.145 24.664 5.550 0.374 1.286 C16 VO8 22 VO8 C17 C17 C 0 1 Y N N N N N 46.979 5.944 25.010 4.605 1.006 0.458 C17 VO8 23 VO8 C18 C18 C 0 1 Y N N N N N 47.547 5.736 26.285 4.900 2.220 -0.181 C18 VO8 24 VO8 C19 C19 C 0 1 Y N N N N N 48.179 4.552 26.591 3.945 2.814 -0.990 C19 VO8 25 VO8 C20 C20 C 0 1 N N N N N N 48.762 4.357 27.891 4.240 4.053 -1.645 C20 VO8 26 VO8 N3 N3 N 0 1 N N N N N N 49.264 4.225 28.912 4.473 5.036 -2.164 N3 VO8 27 VO8 C21 C21 C 0 1 Y N N N N N 48.261 3.546 25.623 2.689 2.209 -1.173 C21 VO8 28 VO8 C22 C22 C 0 1 Y N N N N N 47.726 3.716 24.381 2.387 1.034 -0.562 C22 VO8 29 VO8 C23 C23 C 0 1 Y N N N N N 47.067 4.917 24.042 3.337 0.404 0.260 C23 VO8 30 VO8 C24 C24 C 0 1 Y N N N N N 44.411 1.165 22.192 -2.479 -0.199 1.476 C24 VO8 31 VO8 C25 C25 C 0 1 Y N N N N N 44.454 2.177 23.128 -1.474 -0.264 2.429 C25 VO8 32 VO8 C26 C26 C 0 1 Y N N N N N 45.224 1.944 24.257 -0.977 0.899 2.985 C26 VO8 33 VO8 C27 C27 C 0 1 Y N N N N N 45.917 0.760 24.432 -1.479 2.129 2.594 C27 VO8 34 VO8 C28 C28 C 0 1 Y N N N N N 45.871 -0.256 23.492 -2.480 2.203 1.645 C28 VO8 35 VO8 C29 C29 C 0 1 Y N N N N N 45.104 -0.027 22.369 -2.980 1.041 1.078 C29 VO8 36 VO8 H10 H1 H 0 1 N N N N N N 48.957 5.710 18.333 3.408 -3.558 -2.900 H10 VO8 37 VO8 H22 H2 H 0 1 N N N N N N 43.948 -3.314 18.346 -6.917 3.090 -1.282 H22 VO8 38 VO8 H1 H3 H 0 1 N N N N N N 43.078 -2.532 19.709 -5.696 3.174 -2.575 H1 VO8 39 VO8 H3 H5 H 0 1 N N N N N N 44.790 -3.849 20.327 -6.486 0.660 -1.033 H3 VO8 40 VO8 H5 H7 H 0 1 N N N N N N 42.459 2.714 21.176 -2.638 -2.872 1.846 H5 VO8 41 VO8 H4 H8 H 0 1 N N N N N N 42.093 1.604 19.813 -3.905 -3.126 0.623 H4 VO8 42 VO8 H7 H9 H 0 1 N N N N N N 42.996 3.613 18.886 -1.818 -4.131 -0.168 H7 VO8 43 VO8 H6 H10 H 0 1 N N N N N N 44.269 2.352 18.769 -2.194 -2.708 -1.168 H6 VO8 44 VO8 H8 H11 H 0 1 N N N N N N 44.926 4.500 17.680 -0.724 -3.999 -1.939 H8 VO8 45 VO8 H9 H12 H 0 1 N N N N N N 47.051 5.419 16.825 1.192 -4.501 -3.401 H9 VO8 46 VO8 H11 H13 H 0 1 N N N N N N 48.760 5.093 20.713 3.717 -2.101 -0.942 H11 VO8 47 VO8 H12 H14 H 0 1 N N N N N N 45.447 6.438 21.485 3.773 -2.334 2.207 H12 VO8 48 VO8 H13 H15 H 0 1 N N N N N N 45.293 8.234 23.178 5.970 -1.282 2.530 H13 VO8 49 VO8 H14 H16 H 0 1 N N N N N N 46.244 7.941 25.390 6.520 0.822 1.440 H14 VO8 50 VO8 H15 H17 H 0 1 N N N N N N 47.485 6.515 27.030 5.864 2.688 -0.042 H15 VO8 51 VO8 H16 H18 H 0 1 N N N N N N 48.757 2.618 25.864 1.955 2.684 -1.807 H16 VO8 52 VO8 H17 H19 H 0 1 N N N N N N 47.807 2.925 23.650 1.418 0.581 -0.712 H17 VO8 53 VO8 H18 H20 H 0 1 N N N N N N 43.916 3.103 22.989 -1.080 -1.222 2.737 H18 VO8 54 VO8 H19 H21 H 0 1 N N N N N N 45.284 2.707 25.019 -0.194 0.849 3.727 H19 VO8 55 VO8 H20 H22 H 0 1 N N N N N N 46.509 0.624 25.325 -1.087 3.034 3.033 H20 VO8 56 VO8 H21 H23 H 0 1 N N N N N N 46.409 -1.182 23.632 -2.870 3.163 1.344 H21 VO8 57 VO8 H2 H28 H 0 1 N N N N N N 44.191 -1.567 18.682 -7.187 2.232 -2.819 H2 VO8 58 VO8 H23 H29 H 0 1 N N N N N N 45.903 -2.884 19.300 -5.266 0.744 -2.326 H23 VO8 59 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal VO8 C9 C8 DOUB Y N 1 VO8 C9 C10 SING Y N 2 VO8 C8 C7 SING Y N 3 VO8 C10 C11 DOUB Y N 4 VO8 C1 C2 SING N N 5 VO8 O2 C4 DOUB N N 6 VO8 C6 O3 SING N N 7 VO8 C6 C5 SING N N 8 VO8 C7 O3 SING N N 9 VO8 C7 C12 DOUB Y N 10 VO8 C2 C3 SING N N 11 VO8 C11 C12 SING Y N 12 VO8 C4 N2 SING N N 13 VO8 C4 N1 SING N N 14 VO8 C5 N2 SING N N 15 VO8 C12 O4 SING N N 16 VO8 N2 C24 SING N N 17 VO8 C3 N1 SING N N 18 VO8 C3 O1 DOUB N N 19 VO8 N1 C29 SING N N 20 VO8 O4 C13 SING N N 21 VO8 C24 C29 DOUB Y N 22 VO8 C24 C25 SING Y N 23 VO8 C29 C28 SING Y N 24 VO8 C14 C13 DOUB Y N 25 VO8 C14 C15 SING Y N 26 VO8 C13 C23 SING Y N 27 VO8 C25 C26 DOUB Y N 28 VO8 C15 C16 DOUB Y N 29 VO8 C28 C27 DOUB Y N 30 VO8 C23 C22 DOUB Y N 31 VO8 C23 C17 SING Y N 32 VO8 C26 C27 SING Y N 33 VO8 C22 C21 SING Y N 34 VO8 C16 C17 SING Y N 35 VO8 C17 C18 DOUB Y N 36 VO8 C21 C19 DOUB Y N 37 VO8 C18 C19 SING Y N 38 VO8 C19 C20 SING N N 39 VO8 C20 N3 TRIP N N 40 VO8 C10 H10 SING N N 41 VO8 C1 H22 SING N N 42 VO8 C1 H1 SING N N 43 VO8 C2 H3 SING N N 44 VO8 C5 H5 SING N N 45 VO8 C5 H4 SING N N 46 VO8 C6 H7 SING N N 47 VO8 C6 H6 SING N N 48 VO8 C8 H8 SING N N 49 VO8 C9 H9 SING N N 50 VO8 C11 H11 SING N N 51 VO8 C14 H12 SING N N 52 VO8 C15 H13 SING N N 53 VO8 C16 H14 SING N N 54 VO8 C18 H15 SING N N 55 VO8 C21 H16 SING N N 56 VO8 C22 H17 SING N N 57 VO8 C25 H18 SING N N 58 VO8 C26 H19 SING N N 59 VO8 C27 H20 SING N N 60 VO8 C28 H21 SING N N 61 VO8 C1 H2 SING N N 62 VO8 C2 H23 SING N N 63 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor VO8 SMILES ACDLabs 12.01 "N#Cc1ccc2c(c1)cccc2Oc1ccccc1OCCN1c2ccccc2N(C(=O)CC)C1=O" VO8 InChI InChI 1.06 "InChI=1S/C29H23N3O4/c1-2-28(33)32-24-10-4-3-9-23(24)31(29(32)34)16-17-35-26-11-5-6-12-27(26)36-25-13-7-8-21-18-20(19-30)14-15-22(21)25/h3-15,18H,2,16-17H2,1H3" VO8 InChIKey InChI 1.06 LHEUAVBYYKCINL-UHFFFAOYSA-N VO8 SMILES_CANONICAL CACTVS 3.385 "CCC(=O)N1C(=O)N(CCOc2ccccc2Oc3cccc4cc(ccc34)C#N)c5ccccc15" VO8 SMILES CACTVS 3.385 "CCC(=O)N1C(=O)N(CCOc2ccccc2Oc3cccc4cc(ccc34)C#N)c5ccccc15" VO8 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCC(=O)N1c2ccccc2N(C1=O)CCOc3ccccc3Oc4cccc5c4ccc(c5)C#N" VO8 SMILES "OpenEye OEToolkits" 2.0.7 "CCC(=O)N1c2ccccc2N(C1=O)CCOc3ccccc3Oc4cccc5c4ccc(c5)C#N" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier VO8 "SYSTEMATIC NAME" ACDLabs 12.01 "5-{2-[2-(2-oxo-3-propanoyl-2,3-dihydro-1H-benzimidazol-1-yl)ethoxy]phenoxy}naphthalene-2-carbonitrile" VO8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "5-[2-[2-(2-oxidanylidene-3-propanoyl-benzimidazol-1-yl)ethoxy]phenoxy]naphthalene-2-carbonitrile" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VO8 "Create component" 2023-09-14 RCSB VO8 "Initial release" 2023-11-08 RCSB #